A modular tool to aggregate results from bioinformatics analyses across many samples into a single report.
Report
generated on 2024-02-19, 16:05 EST
based on data in:
/Users/sojeonggwon/biol7210/TeamBGroup1
General Statistics
| Sample Name | N50 (Kbp) | Assembly Length (Mbp) | M Reads Mapped |
|---|---|---|---|
| megahit_processed_B053323_contigs | 101.4Kbp | 4.4Mbp | |
| megahit_processed_B053323_contigs.stat | 1.1 M | ||
| megahit_processed_B055059_contigs | 53.8Kbp | 4.5Mbp | |
| megahit_processed_B055059_contigs.stat | 1.7 M | ||
| megahit_processed_B069073_contigs | 67.8Kbp | 4.3Mbp | |
| megahit_processed_B069073_contigs.stat | 1.4 M | ||
| skesa_processed_B053323_contigs | 61.5Kbp | 4.4Mbp | |
| skesa_processed_B053323_contigs.stat | 1.1 M | ||
| skesa_processed_B055059_contigs | 41.1Kbp | 4.4Mbp | |
| skesa_processed_B055059_contigs.stat | 1.7 M | ||
| skesa_processed_B069073_contigs | 46.2Kbp | 4.2Mbp | |
| skesa_processed_B069073_contigs.stat | 1.4 M | ||
| spades_processed_B053323_contigs | 155.8Kbp | 4.5Mbp | |
| spades_processed_B053323_contigs.stat | 1.1 M | ||
| spades_processed_B055059_contigs | 78.3Kbp | 4.4Mbp | |
| spades_processed_B055059_contigs.stat | 1.7 M | ||
| spades_processed_B069073_contigs | 93.7Kbp | 4.2Mbp | |
| spades_processed_B069073_contigs.stat | 1.4 M |
QUAST
QUAST is a quality assessment tool for genome assemblies, written by the Center for Algorithmic Biotechnology.DOI: 10.1093/bioinformatics/btt086.
Assembly Statistics
| Sample Name | N50 (Kbp) | N75 (Kbp) | L50 (K) | L75 (K) | Largest contig (Kbp) | Length (Mbp) |
|---|---|---|---|---|---|---|
| megahit_processed_B053323_contigs | 101.4Kbp | 46.9Kbp | 0.0K | 0.0K | 254.9Kbp | 4.4Mbp |
| megahit_processed_B055059_contigs | 53.8Kbp | 30.8Kbp | 0.0K | 0.1K | 135.6Kbp | 4.5Mbp |
| megahit_processed_B069073_contigs | 67.8Kbp | 38.1Kbp | 0.0K | 0.0K | 155.6Kbp | 4.3Mbp |
| skesa_processed_B053323_contigs | 61.5Kbp | 37.1Kbp | 0.0K | 0.0K | 193.5Kbp | 4.4Mbp |
| skesa_processed_B055059_contigs | 41.1Kbp | 18.8Kbp | 0.0K | 0.1K | 102.7Kbp | 4.4Mbp |
| skesa_processed_B069073_contigs | 46.2Kbp | 22.9Kbp | 0.0K | 0.1K | 137.6Kbp | 4.2Mbp |
| spades_processed_B053323_contigs | 155.8Kbp | 86.7Kbp | 0.0K | 0.0K | 379.4Kbp | 4.5Mbp |
| spades_processed_B055059_contigs | 78.3Kbp | 47.0Kbp | 0.0K | 0.0K | 178.0Kbp | 4.4Mbp |
| spades_processed_B069073_contigs | 93.7Kbp | 58.0Kbp | 0.0K | 0.0K | 185.1Kbp | 4.2Mbp |
Number of Contigs
This plot shows the number of contigs found for each assembly, broken down by length.
Samtools
Samtools is a suite of programs for interacting with high-throughput sequencing data.DOI: 10.1093/bioinformatics/btp352.
Samtools Flagstat
This module parses the output from samtools flagstat. All numbers in millions.